chore(version): 0.4.2

Signed-off-by: Cameron Smith <cameron.ray.smith@gmail.com>

Author: cameronraysmith

MODULE.bazel

@@ -4,7 +4,7 @@ pyrovelocity MODULE
 
 module(
     name = "pyrovelocity",
-    version = "0.4.1",
+    version = "0.4.2",
     compatibility_level = 1,
 )
 

Makefile

@@ -934,8 +934,8 @@ approve-prs: ## Approve github pull requests from bots: PR_ENTRIES="2-5 10 12-18
 		fi; \
 	done
 
-PREVIOUS_VERSION := 0.4.0
-NEXT_VERSION := 0.4.1
+PREVIOUS_VERSION := 0.4.1
+NEXT_VERSION := 0.4.2
 VERSION_FILES := \
 	pyproject.toml \
 	conda/colab/construct.yaml \

conda/colab/construct.yaml

@@ -1,5 +1,5 @@
 name: pyrovelocity-colab
-version: 0.4.1
+version: 0.4.2
 
 channels:
   - pytorch
@@ -20,7 +20,7 @@ specs:
 
   - absl-py=2.1.0=pyhd8ed1ab_1
   - adjusttext=1.3.0=pyhd8ed1ab_0
-  - adlfs=2024.12.0=pyhd8ed1ab_0
+  - adlfs=20.4.22.0=pyhd8ed1ab_0
   - adwaita-icon-theme=47.0=unix_0
   - aiobotocore=2.21.1=pyhd8ed1ab_0
   - aiohttp=3.9.5=py311h459d7ec_0
@@ -89,7 +89,7 @@ specs:
   - brotli-python=1.1.0=py311hfdbb021_2
   - bzip2=1.0.8=h4bc722e_7
   - c-ares=1.34.4=hb9d3cd8_0
-  - ca-certificates=2025.1.31=hbcca0.4.1
+  - ca-certificates=2025.1.31=hbcca0.4.2
   - cached-property=1.5.2=hd8ed1ab_1
   - cached_property=1.5.2=pyha770c72_1
   - cachetools=5.5.2=pyhd8ed1ab_0
@@ -218,7 +218,7 @@ specs:
   - h2=4.2.0=pyhd8ed1ab_0
   - h5netcdf=1.6.1=pyhd8ed1ab_0
   - h5py=3.13.0=nompi_py311hb639ac4_100
-  - harfbuzz=10.4.1=h76408a6_0
+  - harfbuzz=10.4.2=h76408a6_0
   - hdf5=1.14.3=nompi_h2d575fe_109
   - hicolor-icon-theme=0.17=ha770c72_2
   - hpack=4.1.0=pyhd8ed1ab_0
@@ -260,7 +260,7 @@ specs:
   - jsonlines=4.0.0=pyhd8ed1ab_0
   - jsonpickle=4.0.0=pyh29332c3_0
   - jsonschema=4.23.0=pyhd8ed1ab_1
-  - jsonschema-specifications=2024.10.1=pyhd8ed1ab_1
+  - jsonschema-specifications=20.4.20.1=pyhd8ed1ab_1
   - jupyter_client=8.6.3=pyhd8ed1ab_1
   - jupyter_core=5.7.2=pyh31011fe_1
   - jupyterlab_pygments=0.3.0=pyhd8ed1ab_2
@@ -276,7 +276,7 @@ specs:
   - legacy-api-wrap=1.4.1=pyhd8ed1ab_0
   - leidenalg=0.10.2=py311hb755f60_0
   - lerc=4.0.0=h27087fc_0
-  - libabseil=20240116.2=cxx17_he02047a_1
+  - libabseil=20.4.216.2=cxx17_he02047a_1
   - libaec=1.1.3=h59595ed_0
   - libarrow=17.0.0=h4b47046_3_cpu
   - libarrow-acero=17.0.0=he02047a_3_cpu
@@ -294,7 +294,7 @@ specs:
   - libcufile=1.13.1.3=0
   - libcups=2.3.3=h4637d8d_4
   - libcurand=10.3.9.90=0
-  - libcurl=8.12.1=h332b0.4.1
+  - libcurl=8.12.1=h332b0.4.2
   - libcusolver=11.6.1.9=0
   - libcusparse=12.3.1.170=0
   - libdeflate=1.23=h4ddbbb0_0
@@ -414,7 +414,7 @@ specs:
   - oauthlib=3.2.2=pyhd8ed1ab_1
   - ocl-icd=2.3.2=hb9d3cd8_2
   - omegaconf=2.3.0=pyhd8ed1ab_0
-  - opencl-headers=2024.10.24=h5888daf_0
+  - opencl-headers=20.4.20.24=h5888daf_0
   - openjpeg=2.5.3=h5fbd93e_0
   - openpyxl=3.1.5=py311h50c5138_1
   - openssl=3.4.1=h7b32b05_0
@@ -465,7 +465,7 @@ specs:
   - pyarrow-core=17.0.0=py311h4854187_2_cpu
   - pyarrow-hotfix=0.6=pyhd8ed1ab_1
   - pyasn1=0.6.1=pyhd8ed1ab_2
-  - pyasn1-modules=0.4.1=pyhd8ed1ab_1
+  - pyasn1-modules=0.4.2=pyhd8ed1ab_1
   - pybind11-abi=4=hd8ed1ab_3
   - pycairo=1.27.0=py311h124c5f0_0
   - pycparser=2.22=pyh29332c3_1
@@ -504,7 +504,7 @@ specs:
   - pytorch-cuda=12.4=hc786d27_7
   - pytorch-lightning=2.5.0.post0=pyh101cb37_0
   - pytorch-mutex=1.0=cuda
-  - pytz=2024.1=pyhd8ed1ab_0
+  - pytz=20.4.2=pyhd8ed1ab_0
   - pyu2f=0.1.5=pyhd8ed1ab_1
   - pywin32-on-windows=0.1.0=pyh1179c8e_3
   - pyyaml=6.0.2=py311h2dc5d0c_2
@@ -515,7 +515,7 @@ specs:
   - re2=2023.09.01=h7f4b329_2
   - readline=8.2=h8c095d6_2
   - referencing=0.36.2=pyh29332c3_0
-  - regex=2024.11.6=py311h9ecbd09_0
+  - regex=20.4.21.6=py311h9ecbd09_0
   - requests=2.32.3=pyhd8ed1ab_1
   - requests-mock=1.12.1=pyhd8ed1ab_1
   - requests-oauthlib=2.0.0=pyhd8ed1ab_1

containers/gpu.Dockerfile

@@ -77,7 +77,7 @@ COPY . /root
 # development
 RUN pip install --no-deps -e .
 # distribution
-# RUN pip install pyrovelocity==0.4.1
+# RUN pip install pyrovelocity==0.4.2
 
 ARG tag
 ENV FLYTE_INTERNAL_IMAGE $tag

containers/pkg.Dockerfile

@@ -34,7 +34,7 @@ COPY . /root
 # development
 RUN pip install --no-deps -e .
 # distribution
-# RUN pip install pyrovelocity==0.4.1
+# RUN pip install pyrovelocity==0.4.2
 
 ARG tag
 ENV FLYTE_INTERNAL_IMAGE $tag

docs/source/notebooks/pyrovelocity_colab_template.ipynb

@@ -70,7 +70,7 @@
         }
       ],
       "source": [
-        "pyrovelocity_version = \"0.4.1\"\n",
+        "pyrovelocity_version = \"0.4.2\"\n",
         "pyrovelocity_colab_script_url = (\n",
         "    \"https://storage.googleapis.com/pyrovelocity/data/scripts/\"\n",
         "    + f\"pyrovelocity-colab-{pyrovelocity_version}-Linux-x86_64.sh\"\n",

pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "pyrovelocity"
-version = "0.4.1"
+version = "0.4.2"
 packages = [{ include = "pyrovelocity", from = "src" }]
 description = "A multivariate RNA Velocity model to estimate future cell states with uncertainty using probabilistic modeling with pyro."
 authors = ["pyrovelocity team"]

scripts/conda

@@ -3,7 +3,7 @@
 set -euo pipefail
 
 PACKAGE_NAME="pyrovelocity"
-PACKAGE_VERSION="0.4.1"
+PACKAGE_VERSION="0.4.2"
 CONDA_BUILD_STRING="pyhff70e4c"
 CONDA_BUILD_NUMBER="0"
 # CONDA_CHANNEL_LABEL="pyrovelocity_dev"
@@ -32,7 +32,7 @@ Example:
 
     ./conda \\
     --name pyrovelocity \\
-    --version 0.4.1.dev1 \\
+    --version 0.4.2.dev1 \\
     --build-string pyhff70e4c \\
     --build-number 0 \\
     --label pyrovelocity_dev
@@ -67,9 +67,9 @@ PACKAGE_SPEC="conda-forge/label/\
 $CONDA_CHANNEL_LABEL::\
 $PACKAGE_NAME=$PACKAGE_VERSION=$CONDA_BUILD_STRING"_"$CONDA_BUILD_NUMBER"
 
-BLUE="\0.4.1;34;1m"
+BLUE="\0.4.2;34;1m"
 BOLD="\033[1m"
-NO_COLOR="\0.4.1m"
+NO_COLOR="\0.4.2m"
 if [ "$USE_COLOR" = false ]; then
     BLUE=""
     BOLD=""